Nomosis Pipes brings next-generation molecular dynamics to the cloud — with AI-assisted setups, advanced force fields, and real-time 3D visualization.
Molecular dynamics (MD) software enables scientists to simulate the motion and interactions of atoms over time, providing insights into structural stability, flexibility, and thermodynamics.
Nomosis integrates state-of-the-art MD simulations with AI-driven automation and an interactive molecular viewer — offering a faster, smarter, and more accessible alternative to traditional MD tools.
AI-assisted simulation setup and parameter optimization
Real-time 3D visualization and analysis
Cloud-native scalability and collaboration
Integrated analytics and reporting
Nomosis Pipes combines cutting-edge molecular dynamics with intelligent automation
Automatically configures systems, parameters, and replicas based on molecular type and scientific goals.
Support for modern force fields (AMBER, CHARMM-style), Hydrogen Mass Repartitioning (HMR), and GPU-optimized execution.
Easily launch and manage replica MD runs for enhanced sampling and reproducibility.
Integrate energy minimization, equilibration, and production phases seamlessly within one intelligent pipeline.
Run simulations at scale without local infrastructure limitations.
Version control, experiment tracking, and collaborative workflows built-in.
Nomosis Viewer provides integrated 3D visualization and comprehensive analysis tools
Explore simulations in 3D with customizable representations (cartoon, surface, sticks, spacefill).
Highlight residues, chains, or binding sites dynamically for presentation and analysis.
Real-time calculation of RMSD, RMSF, distances, dihedrals, and hydrogen bonds.
Automatic detection of hydration shells and binding pockets, with dynamic visual overlays.
Estimate transitions and conformational states using integrated kinetic clustering.
Monitor potential energy, kinetic energy, and total energy throughout the simulation trajectory.
From drug discovery to materials science, Nomosis Pipes accelerates research across domains
Binding affinity predictions and ADMET properties
Stability analysis and mutation effects
Protein folding, conformational changes, and biomolecular interactions
Publication-ready simulations and data
See how Nomosis Pipes transforms molecular dynamics workflows
Nomosis Pipes connects seamlessly with the complete Nomosis platform
Pre-trained models and molecular datasets
Secure trajectory storage and sharing
Automated scientific report generation
Export to VMD, PyMOL, ChimeraX
This ecosystem transforms molecular dynamics from a standalone simulation into a complete research workflow — from setup to publication.
The best molecular dynamics software combines accuracy, scalability, and usability.
While traditional MD tools like GROMACS, NAMD, and AMBER excel in performance, they require extensive scripting knowledge and manual parameter optimization. Nomosis Pipes democratizes molecular dynamics through AI-assisted setup, automated parameter selection, and integrated analysis workflows.
Our platform is designed for researchers, startups, and pharmaceutical R&D teams who need reliable molecular dynamics simulation software that scales from proof-of-concept to production without the complexity of traditional tools.
How Nomosis Pipes compares to leading MD tools in speed, usability, and analysis power.
Traditional MD software remains powerful but fragmented — requiring multiple tools for setup, simulation, and analysis. Nomosis Pipes unifies the full workflow in a single intelligent platform, combining automation, visualization, and collaboration to accelerate scientific discovery.
Experience next-generation molecular dynamics today.
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